Locus 7616

Sequence ID dm3.chr3L
Location 15,898,025 – 15,898,150
Length 125
Max. P 0.999495
window10484 window10485

overview

Window 4

Location 15,898,025 – 15,898,150
Length 125
Sequences 5
Columns 125
Reading direction forward
Mean pairwise identity 80.54
Shannon entropy 0.34242
G+C content 0.29032
Mean single sequence MFE -31.64
Consensus MFE -24.62
Energy contribution -24.62
Covariance contribution -0.00
Combinations/Pair 1.31
Mean z-score -3.84
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.80
SVM RNA-class probability 0.999333
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15898025 125 + 24543557
GUUAUCUAACCGAUGUGUUUUAUGGUUAAUUUGAUAUGUUCAAGCACAUGUUAUUGAUUAAAGUAUGAAUUAGGCUCAUUUGAUACUUGAAAAUACUAAAAUAACCAUUACAGAUCGGUACAGAA
....(((.((((((.(((...(((((((.((((.(((.((((((((.(((...((((((........))))))...))).))...)))))).))).)))).))))))).))).))))))..))). ( -33.60, z-score =  -4.08, R)
>droSim1.chr3L 15244083 125 + 22553184
GUUAUCUAACUGAUGUGUUUUAUGGUUAAUUUGAUAUGUUCAAGCACAUGCUAUUGAUAAAUAUAUGAAUUAAGCUCAUUUGAUACUUGAAAAUACUAAAAUAGCCAUUACAGAUCGGUAUAGAA
....((((((((((.(((...(((((((.((((.(((.((((((..((((.((((....)))))))).((((((....)))))).)))))).))).)))).))))))).))).)))))).)))). ( -32.80, z-score =  -3.95, R)
>droSec1.super_0 8005034 125 + 21120651
GUUAUCUAACCGAUGUGUUUUAUGGUUAAUUUGAUAUGUUCAAGCACAUGUUAUUGAUAAAAAUAUGAAUUAAGCUCAAUUGAUACUUGAAAAUACUAAAAUAGCCAUUACAGAUCGGUAUAGAA
....((((((((((.(((...(((((((.((((.(((.((((((..((((((.........)))))).(((((......))))).)))))).))).)))).))))))).))).)))))).)))). ( -35.30, z-score =  -5.23, R)
>droYak2.chr3L_random 3036267 124 - 4797643
GUUAUAUAACCGAUGUGUCUUAUGGUUCAGUUGAUACUUUCAAGCUUCUAUUAUAGAUAAAAAUGUAAAUUUUACUUAUUAAGCACUUGAAAAUACAAAAAUAGCCAUUACAGAUCGGUUUUUA-
.......(((((((.(((...((((((...(((.((.(((((((...((...((((.(((((.......))))).))))..))..))))))).)))))....)))))).))).)))))))....- ( -26.80, z-score =  -2.98, R)
>droEre2.scaffold_4784 18151057 116 + 25762168
--------ACCGACGUGUCCUUUGGCUAAGCUGAUAAUUUCAAGCACAUGUUACGGAUAAAAAUAUGCAAUUUACUUAUUUGGCACUUGAAAACACAAAAAUAGCCAUUACAGGUCGGUUUUUA-
--------((((((.(((....((((((.(((((.....)).))).((.((..(((((((((((.....))))..)))))))..)).))............))))))..))).)))))).....- ( -29.70, z-score =  -2.97, R)
>consensus
GUUAUCUAACCGAUGUGUUUUAUGGUUAAUUUGAUAUGUUCAAGCACAUGUUAUUGAUAAAAAUAUGAAUUAAGCUCAUUUGAUACUUGAAAAUACUAAAAUAGCCAUUACAGAUCGGUAUAGAA
........((((((.(((...(((((((.(((..(((.((((((..((((((.........))))))........((....))..)))))).)))..))).))))))).))).))))))...... (-24.62 = -24.62 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,898,025 – 15,898,150
Length 125
Sequences 5
Columns 125
Reading direction reverse
Mean pairwise identity 80.54
Shannon entropy 0.34242
G+C content 0.29032
Mean single sequence MFE -29.44
Consensus MFE -20.51
Energy contribution -21.75
Covariance contribution 1.24
Combinations/Pair 1.23
Mean z-score -4.09
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.94
SVM RNA-class probability 0.999495
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15898025 125 - 24543557
UUCUGUACCGAUCUGUAAUGGUUAUUUUAGUAUUUUCAAGUAUCAAAUGAGCCUAAUUCAUACUUUAAUCAAUAACAUGUGCUUGAACAUAUCAAAUUAACCAUAAAACACAUCGGUUAGAUAAC
.((((.((((((.(((.(((((((.(((.((((.(((((((((....(((...(((........))).))).......))))))))).)))).))).)))))))...))).)))))))))).... ( -32.10, z-score =  -5.28, R)
>droSim1.chr3L 15244083 125 - 22553184
UUCUAUACCGAUCUGUAAUGGCUAUUUUAGUAUUUUCAAGUAUCAAAUGAGCUUAAUUCAUAUAUUUAUCAAUAGCAUGUGCUUGAACAUAUCAAAUUAACCAUAAAACACAUCAGUUAGAUAAC
.((((.((.(((.(((.((((.((.(((.((((.((((((((((....))(((..(((.(((....))).))))))...)))))))).)))).))).)).))))...))).))).)))))).... ( -23.30, z-score =  -2.39, R)
>droSec1.super_0 8005034 125 - 21120651
UUCUAUACCGAUCUGUAAUGGCUAUUUUAGUAUUUUCAAGUAUCAAUUGAGCUUAAUUCAUAUUUUUAUCAAUAACAUGUGCUUGAACAUAUCAAAUUAACCAUAAAACACAUCGGUUAGAUAAC
.((((.((((((.(((.((((.((.(((.((((.(((((((((..(((((....(((....)))....))))).....))))))))).)))).))).)).))))...))).)))))))))).... ( -30.80, z-score =  -5.25, R)
>droYak2.chr3L_random 3036267 124 + 4797643
-UAAAAACCGAUCUGUAAUGGCUAUUUUUGUAUUUUCAAGUGCUUAAUAAGUAAAAUUUACAUUUUUAUCUAUAAUAGAAGCUUGAAAGUAUCAACUGAACCAUAAGACACAUCGGUUAUAUAAC
-....(((((((.(((.((((........((((((((((((.((..(((..(((((.......)))))..)))...))..))))))))))))........))))...))).)))))))....... ( -29.69, z-score =  -4.31, R)
>droEre2.scaffold_4784 18151057 116 - 25762168
-UAAAAACCGACCUGUAAUGGCUAUUUUUGUGUUUUCAAGUGCCAAAUAAGUAAAUUGCAUAUUUUUAUCCGUAACAUGUGCUUGAAAUUAUCAGCUUAGCCAAAGGACACGUCGGU--------
-.....((((((.(((..((((((..((.(((.(((((((..(....((.(((((.........)))))...))....)..))))))).))).))..))))))....))).))))))-------- ( -31.30, z-score =  -3.24, R)
>consensus
UUCUAUACCGAUCUGUAAUGGCUAUUUUAGUAUUUUCAAGUAUCAAAUGAGCAUAAUUCAUAUUUUUAUCAAUAACAUGUGCUUGAACAUAUCAAAUUAACCAUAAAACACAUCGGUUAGAUAAC
.((((.((((((.(((.((((.((.(((.((((.(((((((((...................................))))))))).)))).))).)).))))...))).)))))))))).... (-20.51 = -21.75 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:30:16 2011